7oos - Revision history

OCA at 07:53, 7 February 2024

2024-02-07T07:53:25Z

← Older revision		Revision as of 07:53, 7 February 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7oos]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OOS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OOS FirstGlance]. <br>		<table><tr><td colspan='2'>[[7oos]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OOS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OOS FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SR:STRONTIUM+ION'>SR</scene></td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.6Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SR:STRONTIUM+ION'>SR</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7oos FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oos OCA], [https://pdbe.org/7oos PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oos RCSB], [https://www.ebi.ac.uk/pdbsum/7oos PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oos ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7oos FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oos OCA], [https://pdbe.org/7oos PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oos RCSB], [https://www.ebi.ac.uk/pdbsum/7oos PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oos ProSAT]</span></td></tr>
	</table>		</table>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Oligonucleotides that target mRNA have great promise as therapeutic agents for life-threatening conditions but suffer from poor bioavailability, hence high cost. As currently untreatable diseases come within the reach of oligonucleotide therapies, new analogues are urgently needed to address this. With this in mind we describe reduced-charge oligonucleotides containing artificial LNA-amide linkages with improved gymnotic cell uptake, RNA affinity, stability and potency. To construct such oligonucleotides, five LNA-amide monomers (A, T, C, 5mC and G), where the 3'-OH is replaced by an ethanoic acid group, are synthesised in good yield and used in solid-phase oligonucleotide synthesis to form amide linkages with high efficiency. The artificial backbone causes minimal structural deviation to the DNA:RNA duplex. These studies indicate that splice-switching oligonucleotides containing LNA-amide linkages and phosphorothioates display improved activity relative to oligonucleotides lacking amides, highlighting the therapeutic potential of this technology.

	An LNA-amide modification that enhances the cell uptake and activity of phosphorothioate exon-skipping oligonucleotides.,Baker YR, Thorpe C, Chen J, Poller LM, Cox L, Kumar P, Lim WF, Lie L, McClorey G, Epple S, Singleton D, McDonough MA, Hardwick JS, Christensen KE, Wood MJA, Hall JP, El-Sagheer AH, Brown T Nat Commun. 2022 Jul 12;13(1):4036. doi: 10.1038/s41467-022-31636-2. PMID:35821218<ref>PMID:35821218</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 7oos" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 03:07, 8 September 2022

2022-09-08T03:07:27Z

← Older revision		Revision as of 03:07, 8 September 2022
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	====		==The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG==
	<StructureSection load='7oos' size='340' side='right'caption='[[7oos]]' scene=''>		<StructureSection load='7oos' size='340' side='right'caption='[[7oos]], [[Resolution\|resolution]] 2.60Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>		<table><tr><td colspan='2'>[[7oos]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7OOS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7OOS FirstGlance]. <br>
	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7oos FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oos OCA], [https://pdbe.org/7oos PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oos RCSB], [https://www.ebi.ac.uk/pdbsum/7oos PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oos ProSAT]</span></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SR:STRONTIUM+ION'>SR</scene></td></tr>
			<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7oos FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oos OCA], [https://pdbe.org/7oos PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oos RCSB], [https://www.ebi.ac.uk/pdbsum/7oos PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oos ProSAT]</span></td></tr>
	</table>		</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Oligonucleotides that target mRNA have great promise as therapeutic agents for life-threatening conditions but suffer from poor bioavailability, hence high cost. As currently untreatable diseases come within the reach of oligonucleotide therapies, new analogues are urgently needed to address this. With this in mind we describe reduced-charge oligonucleotides containing artificial LNA-amide linkages with improved gymnotic cell uptake, RNA affinity, stability and potency. To construct such oligonucleotides, five LNA-amide monomers (A, T, C, 5mC and G), where the 3'-OH is replaced by an ethanoic acid group, are synthesised in good yield and used in solid-phase oligonucleotide synthesis to form amide linkages with high efficiency. The artificial backbone causes minimal structural deviation to the DNA:RNA duplex. These studies indicate that splice-switching oligonucleotides containing LNA-amide linkages and phosphorothioates display improved activity relative to oligonucleotides lacking amides, highlighting the therapeutic potential of this technology.

			An LNA-amide modification that enhances the cell uptake and activity of phosphorothioate exon-skipping oligonucleotides.,Baker YR, Thorpe C, Chen J, Poller LM, Cox L, Kumar P, Lim WF, Lie L, McClorey G, Epple S, Singleton D, McDonough MA, Hardwick JS, Christensen KE, Wood MJA, Hall JP, El-Sagheer AH, Brown T Nat Commun. 2022 Jul 12;13(1):4036. doi: 10.1038/s41467-022-31636-2. PMID:35821218<ref>PMID:35821218</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7oos" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Z-~~disk~~]]		[[Category: Synthetic construct]]
			[[Category: Baker YR]]
			[[Category: Brown T]]
			[[Category: El-Sagheer AH]]
			[[Category: Hall JP]]
			[[Category: Hardwick J]]
			[[Category: McDonough MA]]
			[[Category: Thorpe C]]

OCA at 04:50, 3 August 2022

2022-08-03T04:50:47Z

← Older revision		Revision as of 04:50, 3 August 2022
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7oos ~~is ON HOLD until Paper Publication~~		====
			<StructureSection load='7oos' size='340' side='right'caption='[[7oos]]' scene=''>
	~~Authors~~: ~~Thorpe, C., Hardwick, J~~.~~, McDonough, M~~.A.~~, Hall, J~~.P.~~, Baker, Y~~.~~R., El-Sagheer, A.H., Brown, T~~.		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
	~~Description: The crystal structure of a DNA~~:~~RNA hybrid duplex sequence CTTTTCTTTG~~		</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7oos FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7oos OCA], [https://pdbe.org/7oos PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7oos RCSB], [https://www.ebi.ac.uk/pdbsum/7oos PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7oos ProSAT]</span></td></tr>
	[~~[Category~~: ~~Unreleased Structures~~]]		</table>
	[[~~Category~~: El-~~Sagheer~~, A.H]]		__TOC__
	[[~~Category~~: ~~Baker, Y~~.R]]		</StructureSection>
	[[~~Category~~: ~~Hall, J~~.P]]		[[Category: Large Structures]]
	[~~[Category~~: ~~Brown, T]~~]		[[Category: Z-disk]]
	~~[[Category: Thorpe, C]]~~
	[[Category: ~~Mcdonough, M.A~~]]
	[[Category: ~~Hardwick, J~~]]

OCA at 09:10, 4 August 2021

2021-08-04T09:10:39Z

← Older revision		Revision as of 09:10, 4 August 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7oos is ON HOLD		The entry 7oos is ON HOLD until Paper Publication

	Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T.		Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T.
Line 7:		Line 7:
	Description: The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG		Description: The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
			[[Category: El-Sagheer, A.H]]
			[[Category: Baker, Y.R]]
	[[Category: Hall, J.P]]		[[Category: Hall, J.P]]
	[[Category: Brown, T]]		[[Category: Brown, T]]
			[[Category: Thorpe, C]]
	[[Category: Mcdonough, M.A]]		[[Category: Mcdonough, M.A]]
	~~[[Category: El-Sagheer, A.H]]~~
	~~[[Category: Baker, Y.R]]~~
	~~[[Category: Thorpe, C]]~~
	[[Category: Hardwick, J]]		[[Category: Hardwick, J]]

OCA at 08:47, 7 July 2021

2021-07-07T08:47:57Z

← Older revision		Revision as of 08:47, 7 July 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7oos is ON HOLD ~~until Paper Publication~~		The entry 7oos is ON HOLD

	Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T.		Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T.
Line 7:		Line 7:
	Description: The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG		Description: The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
			[[Category: Hall, J.P]]
			[[Category: Brown, T]]
			[[Category: Mcdonough, M.A]]
	[[Category: El-Sagheer, A.H]]		[[Category: El-Sagheer, A.H]]
	[[Category: Baker, Y.R]]		[[Category: Baker, Y.R]]
	[[Category: Thorpe, C]]		[[Category: Thorpe, C]]
	~~[[Category: Hall, J.P]]~~
	~~[[Category: Mcdonough, M.A]]~~
	[[Category: Hardwick, J]]		[[Category: Hardwick, J]]
	~~[[Category: Brown, T]]~~

OCA at 02:32, 2 July 2021

2021-07-02T02:32:40Z

← Older revision		Revision as of 02:32, 2 July 2021
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7oos is ON HOLD		The entry 7oos is ON HOLD until Paper Publication

	Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T.		Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T.

OCA: Protected "7oos" [edit=sysop:move=sysop]

2021-06-09T11:13:33Z

Protected "7oos" [edit=sysop:move=sysop]

← Older revision	Revision as of 11:13, 9 June 2021
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7oos is ON HOLD Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T. Description: The crystal s...

2021-06-09T11:13:33Z

New page: '''Unreleased structure''' The entry 7oos is ON HOLD Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T. Description: The crystal s...

New page

'''Unreleased structure'''

The entry 7oos is ON HOLD

Authors: Thorpe, C., Hardwick, J., McDonough, M.A., Hall, J.P., Baker, Y.R., El-Sagheer, A.H., Brown, T.

Description: The crystal structure of a DNA:RNA hybrid duplex sequence CTTTTCTTTG
[[Category: Unreleased Structures]]
[[Category: El-Sagheer, A.H]]
[[Category: Baker, Y.R]]
[[Category: Thorpe, C]]
[[Category: Hall, J.P]]
[[Category: Mcdonough, M.A]]
[[Category: Hardwick, J]]
[[Category: Brown, T]]